8QO9 | pdb_00008qo9

Cryo-EM structure of a human spliceosomal B complex protomer

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
A [auth B4]SCOP2B SuperfamilyRNA-binding domain, RBD 8090834 3000110 SCOP2B (2022-06-29)
H [auth BP]SCOP2B SuperfamilyTriquetra zinc finger motif 8051848 3002040 SCOP2B (2022-06-29)
J [auth B6]SCOP2B SuperfamilyRNA-binding domain, RBD 8040695 3000110 SCOP2B (2022-06-29)
N [auth 65]SCOP2B SuperfamilySm-like ribonucleoproteins 8063472 3000419 SCOP2B (2022-06-29)
P [auth 67]SCOP2B SuperfamilySm-like ribonucleoproteins 8063466 3000419 SCOP2B (2022-06-29)
FA [auth 21]SCOP2B SuperfamilySm-like ribonucleoproteins 8041748 3000419 SCOP2B (2022-06-29)
QA [auth 41]SCOP2B SuperfamilySm-like ribonucleoproteins 8041748 3000419 SCOP2B (2022-06-29)
S [auth 51]SCOP2B SuperfamilySm-like ribonucleoproteins 8041748 3000419 SCOP2B (2022-06-29)
AA [auth 2f]SCOP2B SuperfamilySm-like ribonucleoproteins 8063452 3000419 SCOP2B (2022-06-29)
TA [auth 4f]SCOP2B SuperfamilySm-like ribonucleoproteins 8063452 3000419 SCOP2B (2022-06-29)
U [auth 5f]SCOP2B SuperfamilySm-like ribonucleoproteins 8063452 3000419 SCOP2B (2022-06-29)
EA [auth 2e]SCOP2B SuperfamilySm-like ribonucleoproteins 8063476 3000419 SCOP2B (2022-06-29)
RA [auth 4e]SCOP2B SuperfamilySm-like ribonucleoproteins 8063476 3000419 SCOP2B (2022-06-29)
V [auth 5e]SCOP2B SuperfamilySm-like ribonucleoproteins 8063476 3000419 SCOP2B (2022-06-29)
CA [auth 23]SCOP2B SuperfamilySm-like ribonucleoproteins 8041751 3000419 SCOP2B (2022-06-29)
X [auth 53]SCOP2B SuperfamilySm-like ribonucleoproteins 8041751 3000419 SCOP2B (2022-06-29)
UA [auth 43]SCOP2B SuperfamilySm-like ribonucleoproteins 8041751 3000419 SCOP2B (2022-06-29)
Z [auth 2B]SCOP2B SuperfamilyRNA-binding domain, RBD 8035327 3000110 SCOP2B (2022-06-29)
PA [auth W]SCOP2B SuperfamilyCyclophilin-like 8042789 3000168 SCOP2B (2022-06-29)
DB [auth L]SCOP2B SuperfamilyNop domain 8033305 3001551 SCOP2B (2022-06-29)
HB [auth I]SCOP2B SuperfamilyPRP38-like 8055808 3002318 SCOP2B (2022-06-29)
KB [auth M]SCOP2B SuperfamilyL30e-like 8043738 3001739 SCOP2B (2022-06-29)
LB [auth T]SCOP2B SuperfamilyFF domain 8003754 3000078 SCOP2B (2022-06-29)
LB [auth T]SCOP2B SuperfamilyFF domain 8033785 3000078 SCOP2B (2022-06-29)
QB [auth s]SCOP2B SuperfamilyUbiquitin-like 8038047 3000157 SCOP2B (2022-06-29)
G [auth B3]SCOP2B SuperfamilyWD40 repeat-like 8052535 3001694 SCOP2B (2022-06-29)
G [auth B3]SCOP2B SuperfamilyWD40 repeat-like 8052534 3001694 SCOP2B (2022-06-29)
G [auth B3]SCOP2B SuperfamilyWD40 repeat-like 8051197 3001694 SCOP2B (2022-06-29)
G [auth B3]SCOP2B SuperfamilyWD40 repeat-like 8052534 3001694 SCOP2B (2022-06-29)
GB [auth A]SCOP2B SuperfamilyRibonuclease H-like 8041105 3000143 SCOP2B (2022-06-29)
GB [auth A]SCOP2B SuperfamilyJAB1/MPN domain-like 8053277 3001105 SCOP2B (2022-06-29)
ZA [auth D]SCOP2B SuperfamilyThioredoxin-like 8044390 3000031 SCOP2B (2022-06-29)
JA [auth B]SCOP2B SuperfamilyBrl domain-like 8036193 3000115 SCOP2B (2022-06-29)
JA [auth B]SCOP2B SuperfamilyE set domains 8055093 3000070 SCOP2B (2022-06-29)
GA [auth 2A]SCOP2B SuperfamilyL domain-like 8043993 3001010 SCOP2B (2022-06-29)
DA [auth 2g]SCOP2B SuperfamilySm-like ribonucleoproteins 8063468 3000419 SCOP2B (2022-06-29)
W [auth 5g]SCOP2B SuperfamilySm-like ribonucleoproteins 8063468 3000419 SCOP2B (2022-06-29)
WA [auth 4g]SCOP2B SuperfamilySm-like ribonucleoproteins 8063468 3000419 SCOP2B (2022-06-29)
SA [auth 42]SCOP2B SuperfamilySm-like ribonucleoproteins 8041749 3000419 SCOP2B (2022-06-29)
T [auth 52]SCOP2B SuperfamilySm-like ribonucleoproteins 8041749 3000419 SCOP2B (2022-06-29)
Y [auth 22]SCOP2B SuperfamilySm-like ribonucleoproteins 8041749 3000419 SCOP2B (2022-06-29)
BA [auth 2b]SCOP2B SuperfamilySm-like ribonucleoproteins 8041747 3000419 SCOP2B (2022-06-29)
R [auth 5b]SCOP2B SuperfamilySm-like ribonucleoproteins 8041747 3000419 SCOP2B (2022-06-29)
VA [auth 4b]SCOP2B SuperfamilySm-like ribonucleoproteins 8041747 3000419 SCOP2B (2022-06-29)
Q [auth 68]SCOP2B SuperfamilySm-like ribonucleoproteins 8063492 3000419 SCOP2B (2022-06-29)
O [auth 66]SCOP2B SuperfamilySm-like ribonucleoproteins 8063442 3000419 SCOP2B (2022-06-29)
M [auth 64]SCOP2B SuperfamilySm-like ribonucleoproteins 8063488 3000419 SCOP2B (2022-06-29)
L [auth 63]SCOP2B SuperfamilySm-like ribonucleoproteins 8063456 3000419 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A [auth B4]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
C [auth 9],
SB [auth H]		PF16837Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9 (SF3A3)Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9SF3A3 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp2 ...SF3A3 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp21 (subunit 1). Prp9 and Prp21 were not thought to interact with each other but the alpha1 helix of Prp9 does make important contacts with the SURP2 domain of Prp21, thus the two do interact via a bidentate-binding mode. Prp9 harbours a major binding site for stem-loop IIa of U2 snRNA [1].
Domain
C [auth 9],
SB [auth H]		PF13297Replication stress response SDE2 C-terminal (SDE2_2C)Replication stress response SDE2 C-terminalThis domain represents the C-terminal region of the Replication stress response SDE2, a genome surveillance factor. It contains the DNA-binding SAP domain, frequently found in proteins involved in DNA repair. SDE2 C-terminal domain must be cleaved fr ...This domain represents the C-terminal region of the Replication stress response SDE2, a genome surveillance factor. It contains the DNA-binding SAP domain, frequently found in proteins involved in DNA repair. SDE2 C-terminal domain must be cleaved from its N-terminal at a diglycine motif within the ubiquitin-like fold, after Proliferating cell nuclear antigen (PCNA) interaction. This generates a functional protein that negatively regulates damage-inducible PCNA monoubiquitination, which then is proteolytically degraded to allow S phase progression and replication fork recovery in response to DNA damage [1].
Domain
C [auth 9],
SB [auth H]		PF12108Splicing factor SF3a60 binding domain (SF3a60_bindingd)Splicing factor SF3a60 binding domainThis domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is th ...This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription.
Domain
D [auth B2]PF04037Domain of unknown function (DUF382) (DUF382)Domain of unknown function (DUF382)- Family
D [auth B2]PF04046PSP (PSP)PSP- Family
I [auth B1]PF22646PPP2R1A-like HEAT repeat (PPP2R1A-like_HEAT)PPP2R1A-like HEAT repeat- Repeat
J [auth B6]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
N [auth 65]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
P [auth 67]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
FA [auth 21],
QA [auth 41],
S [auth 51]		PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
CA [auth 23],
UA [auth 43],
X [auth 53]		PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
Z [auth 2B]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
Z [auth 2B]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
IA [auth E]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PA [auth W]PF00160Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD (Pro_isomerase)Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLDThe peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond pr ...The peptidyl-prolyl cis-trans isomerases, also known as cyclophilins, share this domain of about 109 amino acids. Cyclophilins have been found in all organisms studied so far and catalyse peptidyl-prolyl isomerisation during which the peptide bond preceding proline (the peptidyl-prolyl bond) is stabilised in the cis conformation. Mammalian cyclophilin A (CypA) is a major cellular target for the immunosuppressive drug cyclosporin A (CsA). Other roles for cyclophilins may include chaperone and cell signalling function [1].
Domain
PA [auth W]PF17814LisH-like dimerisation domain (LisH_TPL)LisH-like dimerisation domainTOPLESS (TPL) proteins have a highly conserved N-terminal domain containing a lissencephaly homologous (LisH) dimerization motif [1]. Domain
DB [auth L]PF09785Prp31 C terminal domain (Prp31_C)Prp31 C terminal domain- Family
DB [auth L]PF01798snoRNA binding domain, fibrillarin (Nop)snoRNA binding domain, fibrillarin- Family
FB [auth N]PF14559Tetratricopeptide repeat (TPR_19)Tetratricopeptide repeat- Repeat
FB [auth N]PF06424PRP1 splicing factor, N-terminal (PRP1_N)PRP1 splicing factor, N-terminalThis domain is specific to the N-terminal part of the prp1 splicing factor, which is involved in mRNA splicing (and possibly also poly(A)+ RNA nuclear export and cell cycle progression). This domain is specific to the N terminus of the RNA splicing f ...This domain is specific to the N-terminal part of the prp1 splicing factor, which is involved in mRNA splicing (and possibly also poly(A)+ RNA nuclear export and cell cycle progression). This domain is specific to the N terminus of the RNA splicing factor encoded by prp1 [1]. It is involved in mRNA splicing and possibly also poly(A)and RNA nuclear export and cell cycle progression.
Domain
FB [auth N]PF13432Tetratricopeptide repeat (TPR_16)Tetratricopeptide repeat- Repeat
HB [auth I]PF12871Pre-mRNA-splicing factor 38-associated hydrophilic C-term (PRP38_assoc)Pre-mRNA-splicing factor 38-associated hydrophilic C-termThis domain is a hydrophilic region found at the C-terminus of plant and metazoan pre-mRNA-splicing factor 38 proteins. The function is not known. Domain
HB [auth I]PF03371PRP38 family (PRP38)PRP38 family- Family
IB [auth S]PF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].
Domain
IB [auth S]PF03343SART-1 family (SART-1)SART-1 family- Family
JB [auth C]PF00679Elongation factor G C-terminus (EFG_C)Elongation factor G C-terminusThis domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold. Domain
JB [auth C]PF00009Elongation factor Tu GTP binding domain (GTP_EFTU)Elongation factor Tu GTP binding domainThis domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Domain
JB [auth C]PF14492Elongation Factor G, domain III (EFG_III)Elongation Factor G, domain IIIThis domain is found in Elongation Factor G. It shares a similar structure with domain V (Pfam:PF00679). Structural studies in drosophila indicate this is domain 3 [1]. Domain
JB [auth C]PF03144Elongation factor Tu domain 2 (GTP_EFTU_D2)Elongation factor Tu domain 2Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ...Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to Pfam:PF03143, and in fact has weak sequence matches to this domain.
Domain
JB [auth C]PF03764Elongation factor G, domain IV (EFG_IV)Elongation factor G, domain IVThis domain is found in elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopts a ribosomal protein S5 domain 2-like fold. Domain
KB [auth M]PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
LB [auth T]PF01846FF domain (FF)FF domain- Family
PB [auth J]PF06544Small nuclear ribonucleoprotein Prp3, C-terminal domain (Prp3_C)Small nuclear ribonucleoprotein Prp3, C-terminal domainThis domain is found at the C-terminal end of U4/U6 and U4/U5/U6- small nuclear ribonucleoprotein Prp3, part of the tri-RNA complex that form the spliceosome. Prp3 plays a key role in the recognition of the snRNA duplex. This binding domain, highly c ...This domain is found at the C-terminal end of U4/U6 and U4/U5/U6- small nuclear ribonucleoprotein Prp3, part of the tri-RNA complex that form the spliceosome. Prp3 plays a key role in the recognition of the snRNA duplex. This binding domain, highly conserved among eukaryotes, interacts with the 3' end of U6 snRNA. It adopts a ferredoxin-like fold, showing a five-stranded mixed beta-sheet with three alpha-helices, two of them running parallel to the beta-strands on one side of the sheet and one on the other. This fold is extended with a long beta-hairpin, an extra beta-strand, an helix and a final loop at the C terminus. It is located C-terminal to Pfam:PF08572 [1-4].
Domain
G [auth B3]PF10433RSE1/DDB1/CPSF1 first beta-propeller (Beta-prop_RSE1_1st)RSE1/DDB1/CPSF1 first beta-propeller- Repeat
G [auth B3]PF03178CPSF A subunit region (CPSF_A)CPSF A subunit region- Repeat
GB [auth A]PF10597U5-snRNA binding site 2 of PrP8 (U5_2-snRNA_bdg)U5-snRNA binding site 2 of PrP8The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis [1]. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that ...The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis [1]. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that Prp8 could directly affect the function of the catalytic core, perhaps acting as a splicing cofactor [2].
Domain
GB [auth A]PF10598RNA recognition motif of the spliceosomal PrP8 (RRM_4)RNA recognition motif of the spliceosomal PrP8The large RNA-protein complex of the spliceosome catalyses pre-mRNA splicing. One of the most conserved core proteins is PrP8 which occupies a central position in the catalytic core of the spliceosome, and has been implicated in several crucial molec ...The large RNA-protein complex of the spliceosome catalyses pre-mRNA splicing. One of the most conserved core proteins is PrP8 which occupies a central position in the catalytic core of the spliceosome, and has been implicated in several crucial molecular rearrangements that occur there, and has recently come under the spotlight for its role in the inherited human disease, Retinitis Pigmentosa [1]. The RNA-recognition motif of PrP8 is highly conserved and provides a possible RNA binding centre for the 5-prime SS, BP, or 3-prime SS of pre-mRNA which are known to contact with Prp8. The most conserved regions of an RRM are defined as the RNP1 and RNP2 sequences. Recognition of RNA targets can also be modulated by a number of other factors, most notably the two loops beta1-alpha1, beta2-beta3 and the amino acid residues C-terminal to the RNP2 domain [2].
Domain
GB [auth A]PF10596U6-snRNA interacting domain of PrP8 (U6-snRNA_bdg)U6-snRNA interacting domain of PrP8This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome, and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 ...This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome, and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that Prp8 could directly affect the function of the catalytic core, perhaps acting as a splicing cofactor [1].
Domain
GB [auth A]PF12134PRP8 domain IV core (PRP8_domainIV)PRP8 domain IV coreThis domain is found in eukaryotes, and is about 20 amino acids in length. It is found associated with Pfam:PF10597, Pfam:PF10596, Pfam:PF10598, Pfam:PF08083, Pfam:PF08082, Pfam:PF01398, Pfam:PF08084. There is a conserved LILR sequence motif. The dom ...This domain is found in eukaryotes, and is about 20 amino acids in length. It is found associated with Pfam:PF10597, Pfam:PF10596, Pfam:PF10598, Pfam:PF08083, Pfam:PF08082, Pfam:PF01398, Pfam:PF08084. There is a conserved LILR sequence motif. The domain is a selenomethionine domain in a subunit of the spliceosome. This domain adopts a RNase H like fold within its core structure but with little sequence similarity. The function of PRP8 domain IV is believed to be interaction with the splicosomal core [1].
Domain
GB [auth A]PF08082PRO8NT (NUC069), PrP8 N-terminal domain (PRO8NT)PRO8NT (NUC069), PrP8 N-terminal domainThe PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family [1]. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly va ...The PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family [1]. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly variable proline-rich region [4].
Domain
GB [auth A]PF08083PROCN (NUC071) domain (PROCN)PROCN (NUC071) domainThe PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family [1]. Domain
GB [auth A]PF08084PROCT (NUC072) domain (PROCT)PROCT (NUC072) domainThe PROCT domain is the C-terminal domain in pre-mRNA splicing factors of PRO8 family [1]. Domain
GB [auth A]PF01398JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB)JAB1/Mov34/MPN/PAD-1 ubiquitin proteaseProteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or J ...Proteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or JAMM domain [7]. These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signalling and protein turnover pathways in eukaryotes [7]. Versions of the domain in prokaryotic cognates of the ubiquitin-modification pathway are shown to have a similar role, and the archaeal protein from Haloferax volcanii is found to cleave ubiquitin-like small archaeal modifier proteins (SAMP1/2) from protein conjugates [8,9].
Domain
EB [auth F]PF08799pre-mRNA processing factor 4 (PRP4) like (PRP4)pre-mRNA processing factor 4 (PRP4) likeThis small domain is found on PRP4 ribonuleoproteins. PRP4 is a U4/U6 small nuclear ribonucleoprotein that is involved in pre-mRNA processing. Domain
EB [auth F]PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
CB [auth Z]PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
AB [auth X]PF06220U1 zinc finger (zf-U1)U1 zinc fingerThis family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class o ...This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' ss is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' ss. Binding of TIA-1 in the vicinity of a 5' ss helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator [1]. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.
Domain
ZA [auth D]PF02966Mitosis protein DIM1 (DIM1)Mitosis protein DIM1Domain
JA [auth B]PF02889Sec63 Brl domain (Sec63)Sec63 Brl domain- Family
JA [auth B]PF00270DEAD/DEAH box helicase (DEAD)DEAD/DEAH box helicaseMembers of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Domain
JA [auth B]PF00271Helicase conserved C-terminal domain (Helicase_C)Helicase conserved C-terminal domainThe Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. Domain
HA [auth 7]PF12230Pre-mRNA splicing factor PRP21 like protein (PRP21_like_P)Pre-mRNA splicing factor PRP21 like protein- Family
HA [auth 7]PF01805Surp module (Surp)Surp module- Family
SA [auth 42],
T [auth 52],
Y [auth 22]		PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
B [auth 8],
RB [auth G]		PF12874Zinc-finger of C2H2 type (zf-met)Zinc-finger of C2H2 typeThis is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding. Domain
B [auth 8],
RB [auth G]		PF16835Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11) (SF3A2)Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)SF3A2 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp2 ...SF3A2 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp21 (subunit 1). with Prp21 wrapping around Prp11 [1].
Domain
O [auth 66]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
M [auth 64]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
L [auth 63]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
K [auth 62]PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth B4]Splicing factor 3B subunit 4
C [auth 9],
SB [auth H]		Splicing factor 3A subunit 3
D [auth B2]Splicing factor 3B subunit 2
E [auth B5]Splicing factor 3B subunit 5
H [auth BP]PHD finger-like domain-containing protein 5A
I [auth B1]Splicing factor 3B subunit 1
J [auth B6]Splicing factor 3B subunit 6
N [auth 65]U6 snRNA-associated Sm-like protein LSm5
P [auth 67]U6 snRNA-associated Sm-like protein LSm7
FA [auth 21],
QA [auth 41],
S [auth 51]		Small nuclear ribonucleoprotein Sm D1
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		Small nuclear ribonucleoprotein F
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		Small nuclear ribonucleoprotein E
CA [auth 23],
UA [auth 43],
X [auth 53]		Small nuclear ribonucleoprotein Sm D3
Z [auth 2B]U2 small nuclear ribonucleoprotein B''
IA [auth E]U5 small nuclear ribonucleoprotein 40 kDa protein
KA [auth x],
LA [auth y]		Protein Red
PA [auth W]Peptidyl-prolyl cis-trans isomerase H
XA [auth 5]U5 snRNA---
YA [auth Q]Protein BUD31 homolog
DB [auth L]U4/U6 small nuclear ribonucleoprotein Prp31
FB [auth N]Pre-mRNA-processing factor 6
HB [auth I]Pre-mRNA-splicing factor 38A
IB [auth S]U4/U6.U5 tri-snRNP-associated protein 1
JB [auth C]116 kDa U5 small nuclear ribonucleoprotein component
KB [auth M]NHP2-like protein 1, N-terminally processed
LB [auth T]Transcription elongation regulator 1
MB [auth 4]U4 snRNA---
OB [auth r]Zinc finger matrin-type protein 2
PB [auth J]U4/U6 small nuclear ribonucleoprotein Prp3
QB [auth s]Ubiquitin-like protein 5
G [auth B3]Splicing factor 3B subunit 3
F [auth 2]U2 snRNA---
NB [auth 6]U6 snRNA---
GB [auth A]Pre-mRNA-processing-splicing factor 8
EB [auth F]U4/U6 small nuclear ribonucleoprotein Prp4
CB [auth Z]MINX pre-mRNA---
BB [auth K]Microfibrillar-associated protein 1
AB [auth X]WW domain-binding protein 4
ZA [auth D]Thioredoxin-like protein 4A-
OA [auth z]Serine/arginine-rich splicing factor 1
MA [auth v],
NA [auth w]		WD40 repeat-containing protein SMU1-
JA [auth B]U5 small nuclear ribonucleoprotein 200 kDa helicase
HA [auth 7]Splicing factor 3A subunit 1
GA [auth 2A]U2 small nuclear ribonucleoprotein A'
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		Small nuclear ribonucleoprotein G
SA [auth 42],
T [auth 52],
Y [auth 22]		Small nuclear ribonucleoprotein Sm D2
B [auth 8],
RB [auth G]		Splicing factor 3A subunit 2
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		Small nuclear ribonucleoprotein-associated proteins B and B'
Q [auth 68]U6 snRNA-associated Sm-like protein LSm8
O [auth 66]U6 snRNA-associated Sm-like protein LSm6
M [auth 64]U6 snRNA-associated Sm-like protein LSm4
L [auth 63]U6 snRNA-associated Sm-like protein LSm3
K [auth 62]U6 snRNA-associated Sm-like protein LSm2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A [auth B4]IPR034159SF3B4, RNA recognition motif 2Domain
A [auth B4]IPR000504RNA recognition motif domainDomain
A [auth B4]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
A [auth B4]IPR035979RNA-binding domain superfamilyHomologous Superfamily
A [auth B4]IPR034158SF3B4, RNA recognition motif 1Domain
A [auth B4]IPR052084Spliceosome-associated SF3B4 subunitFamily
C [auth 9],
SB [auth H]		IPR021966Splicing factor SF3a60 binding domainDomain
C [auth 9],
SB [auth H]		IPR031774SF3A3 domainDomain
C [auth 9],
SB [auth H]		IPR024598Splicing factor SF3a60 /Prp9 subunit, C-terminalDomain
C [auth 9],
SB [auth H]		IPR025086SDE2/SF3A3, SAP domainDomain
C [auth 9],
SB [auth H]		IPR000690Matrin/U1-C, C2H2-type zinc fingerDomain
C [auth 9],
SB [auth H]		IPR051421RNA Processing and DNA Damage Response RegulatorFamily
D [auth B2]IPR006568PSP, proline-richDomain
D [auth B2]IPR007180Domain of unknown function DUF382Domain
D [auth B2]IPR003034SAP domainDomain
D [auth B2]IPR052584Pre-mRNA Spliceosomal U2 snRNP Complex ComponentFamily
E [auth B5]IPR017089Splicing factor 3B, subunit 5Family
E [auth B5]IPR009846Splicing factor 3B subunit 5/RDS3 complex subunit 10Family
H [auth BP]IPR005345PHF5-likeFamily
I [auth B1]IPR054573Phosphatase PP2A regulatory subunit A/Splicing factor 3B subunit 1-like, HEAT repeatDomain
I [auth B1]IPR016024Armadillo-type foldHomologous Superfamily
I [auth B1]IPR011989Armadillo-like helicalHomologous Superfamily
I [auth B1]IPR015016Splicing factor 3B subunit 1Domain
I [auth B1]IPR038737Splicing factor 3B subunit 1-likeFamily
J [auth B6]IPR000504RNA recognition motif domainDomain
J [auth B6]IPR050374RRT5/SRSF/Splicing Factor SRFamily
J [auth B6]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
J [auth B6]IPR034150SF3B6, RNA recognition motifDomain
J [auth B6]IPR035979RNA-binding domain superfamilyHomologous Superfamily
N [auth 65]IPR001163Sm domain, eukaryotic/archaea-typeDomain
N [auth 65]IPR047575Sm domainDomain
N [auth 65]IPR033871Sm-like protein LSm5Domain
N [auth 65]IPR010920LSM domain superfamilyHomologous Superfamily
P [auth 67]IPR001163Sm domain, eukaryotic/archaea-typeDomain
P [auth 67]IPR047575Sm domainDomain
P [auth 67]IPR044641Sm-like protein Lsm7/SmGFamily
P [auth 67]IPR010920LSM domain superfamilyHomologous Superfamily
P [auth 67]IPR017132Sm-like protein Lsm7Family
FA [auth 21],
QA [auth 41],
S [auth 51]		IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
FA [auth 21],
QA [auth 41],
S [auth 51]		IPR034102Small nuclear ribonucleoprotein D1Domain
FA [auth 21],
QA [auth 41],
S [auth 51]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
FA [auth 21],
QA [auth 41],
S [auth 51]		IPR047575Sm domainDomain
FA [auth 21],
QA [auth 41],
S [auth 51]		IPR010920LSM domain superfamilyHomologous Superfamily
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		IPR016487Sm-like protein Lsm6/SmFFamily
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		IPR034100Small nuclear ribonucleoprotein FFamily
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		IPR047575Sm domainDomain
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		IPR010920LSM domain superfamilyHomologous Superfamily
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		IPR027078Small nuclear ribonucleoprotein EFamily
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		IPR047575Sm domainDomain
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		IPR010920LSM domain superfamilyHomologous Superfamily
CA [auth 23],
UA [auth 43],
X [auth 53]		IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
CA [auth 23],
UA [auth 43],
X [auth 53]		IPR034099Small nuclear ribonucleoprotein Sm D3Family
CA [auth 23],
UA [auth 43],
X [auth 53]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
CA [auth 23],
UA [auth 43],
X [auth 53]		IPR047575Sm domainDomain
CA [auth 23],
UA [auth 43],
X [auth 53]		IPR010920LSM domain superfamilyHomologous Superfamily
Z [auth 2B]IPR034562U2 small nuclear ribonucleoprotein B'', RNA recognition motif 2Domain
Z [auth 2B]IPR000504RNA recognition motif domainDomain
Z [auth 2B]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
Z [auth 2B]IPR035979RNA-binding domain superfamilyHomologous Superfamily
Z [auth 2B]IPR034564U2 small nuclear ribonucleoprotein B'', RNA recognition motif 1Domain
IA [auth E]IPR052234U5 snRNP Complex ComponentFamily
IA [auth E]IPR019775WD40 repeat, conserved siteConserved Site
IA [auth E]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IA [auth E]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
IA [auth E]IPR001680WD40 repeatRepeat
IA [auth E]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
KA [auth x],
LA [auth y]		IPR039896Protein Red-likeFamily
KA [auth x],
LA [auth y]		IPR012916RED-like, N-terminalDomain
KA [auth x],
LA [auth y]		IPR012492Protein RED, C-terminalDomain
PA [auth W]IPR029000Cyclophilin-like domain superfamilyHomologous Superfamily
PA [auth W]IPR024936Cyclophilin-type peptidyl-prolyl cis-trans isomeraseFamily
PA [auth W]IPR002130Cyclophilin-type peptidyl-prolyl cis-trans isomerase domainDomain
PA [auth W]IPR020892Cyclophilin-type peptidyl-prolyl cis-trans isomerase, conserved siteConserved Site
YA [auth Q]IPR001748Pre-mRNA-splicing factor BUD31Family
YA [auth Q]IPR018230BUD31/G10-related, conserved siteConserved Site
DB [auth L]IPR042239Nop, C-terminal domainHomologous Superfamily
DB [auth L]IPR019175Prp31 C-terminalDomain
DB [auth L]IPR002687Nop domainDomain
DB [auth L]IPR012976NOSICDomain
DB [auth L]IPR027105U4/U6 small nuclear ribonucleoprotein Prp31Family
DB [auth L]IPR036070Nop domain superfamilyHomologous Superfamily
FB [auth N]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
FB [auth N]IPR019734Tetratricopeptide repeatRepeat
FB [auth N]IPR010491PRP1 splicing factor, N-terminalDomain
FB [auth N]IPR003107HAT (Half-A-TPR) repeatRepeat
FB [auth N]IPR045075Pre-mRNA-splicing factor Syf1-likeFamily
HB [auth I]IPR024767Pre-mRNA-splicing factor 38, C-terminalDomain
HB [auth I]IPR005037Pre-mRNA-splicing factor 38Family
IB [auth S]IPR045347HIND motifConserved Site
IB [auth S]IPR005011SNU66/SART1 familyFamily
JB [auth C]IPR005517Translation elongation factor EFG/EF2, domain IVDomain
JB [auth C]IPR000795Translational (tr)-type GTP-binding domainDomain
JB [auth C]IPR035647EF-G domain III/V-likeHomologous Superfamily
JB [auth C]IPR035655116kDa U5 small nuclear ribonucleoprotein component, C-terminalDomain
JB [auth C]IPR041095Elongation Factor G, domain IIDomain
JB [auth C]IPR004161Translation elongation factor EFTu-like, domain 2Domain
JB [auth C]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
JB [auth C]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
JB [auth C]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
JB [auth C]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
JB [auth C]IPR031950116kDa U5 small nuclear ribonucleoprotein component, N-terminalDomain
JB [auth C]IPR005225Small GTP-binding domainDomain
JB [auth C]IPR000640Elongation factor EFG, domain V-likeDomain
JB [auth C]IPR044121Snu114, GTP-binding domainDomain
KB [auth M]IPR002415H/ACA ribonucleoprotein complex, subunit Nhp2-likeFamily
KB [auth M]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
KB [auth M]IPR018492Ribosomal protein eL8/Nhp2 familyFamily
KB [auth M]IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
KB [auth M]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
KB [auth M]IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
LB [auth T]IPR036517FF domain superfamilyHomologous Superfamily
LB [auth T]IPR002713FF domainDomain
LB [auth T]IPR036020WW domain superfamilyHomologous Superfamily
LB [auth T]IPR001202WW domainDomain
LB [auth T]IPR045148Transcription elongation regulator 1-likeFamily
OB [auth r]IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
OB [auth r]IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
OB [auth r]IPR040107U4/U6.U5 small nuclear ribonucleoprotein component Snu23Family
OB [auth r]IPR022755Zinc finger, double-stranded RNA bindingDomain
PB [auth J]IPR027104U4/U6 small nuclear ribonucleoprotein Prp3Family
PB [auth J]IPR002483PWI domainDomain
PB [auth J]IPR013881Pre-mRNA-splicing factor 3 domainDomain
PB [auth J]IPR036483PWI domain superfamilyHomologous Superfamily
PB [auth J]IPR010541Small nuclear ribonucleoprotein Prp3, C-terminal domainDomain
QB [auth s]IPR039732Ubiquitin-like modifier Hub1/Ubl5Family
QB [auth s]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
QB [auth s]IPR000626Ubiquitin-like domainDomain
G [auth B3]IPR050358RSE1/DDB1/CPSF1Family
G [auth B3]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
G [auth B3]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
G [auth B3]IPR018846RSE1/DDB1/CPSF1, first beta-propellerDomain
G [auth B3]IPR004871RSE1/DDB1/CPSF1, C-terminalDomain
GB [auth A]IPR012984PROCT domainDomain
GB [auth A]IPR012591PRO8NT domainDomain
GB [auth A]IPR019580Pre-mRNA-processing-splicing factor 8, U6-snRNA-bindingDomain
GB [auth A]IPR027652Pre-mRNA-processing-splicing factor 8Family
GB [auth A]IPR043172Prp8 RNase domain IV, palm regionHomologous Superfamily
GB [auth A]IPR012592PROCN domainDomain
GB [auth A]IPR012337Ribonuclease H-like superfamilyHomologous Superfamily
GB [auth A]IPR043173Prp8 RNase domain IV, fingers regionHomologous Superfamily
GB [auth A]IPR021983PRP8 domain IV coreDomain
GB [auth A]IPR019581Pre-mRNA-processing-splicing factor 8, U5-snRNA-bindingDomain
GB [auth A]IPR037518MPN domainDomain
GB [auth A]IPR019582RNA recognition motif, spliceosomal PrP8Domain
GB [auth A]IPR042516Pre-mRNA-processing-splicing factor 8, U5-snRNA-binding domain superfamilyHomologous Superfamily
GB [auth A]IPR000555JAB1/MPN/MOV34 metalloenzyme domainDomain
EB [auth F]IPR019775WD40 repeat, conserved siteConserved Site
EB [auth F]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
EB [auth F]IPR036285PRP4-like superfamilyHomologous Superfamily
EB [auth F]IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
EB [auth F]IPR014906Pre-mRNA processing factor 4 (PRP4)-likeDomain
EB [auth F]IPR001680WD40 repeatRepeat
EB [auth F]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
BB [auth K]IPR033194Microfibrillar-associated protein 1Family
BB [auth K]IPR009730Micro-fibrillar-associated protein 1, C-terminalDomain
AB [auth X]IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
AB [auth X]IPR040023WW domain-binding protein 4Family
AB [auth X]IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
AB [auth X]IPR036020WW domain superfamilyHomologous Superfamily
AB [auth X]IPR000690Matrin/U1-C, C2H2-type zinc fingerDomain
AB [auth X]IPR001202WW domainDomain
AB [auth X]IPR013085U1-C, C2H2-type zinc fingerDomain
ZA [auth D]IPR004123Dim1 familyFamily
ZA [auth D]IPR036249Thioredoxin-like superfamilyHomologous Superfamily
OA [auth z]IPR050374RRT5/SRSF/Splicing Factor SRFamily
OA [auth z]IPR034520SRSF1, RNA recognition motif 1Domain
OA [auth z]IPR029538Serine/arginine-rich splicing factor 1, RNA recognition motif 2Domain
OA [auth z]IPR000504RNA recognition motif domainDomain
OA [auth z]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
OA [auth z]IPR035979RNA-binding domain superfamilyHomologous Superfamily
MA [auth v],
NA [auth w]		IPR054532TPL/SMU1, LisH-like dimerisation domainDomain
MA [auth v],
NA [auth w]		IPR019775WD40 repeat, conserved siteConserved Site
MA [auth v],
NA [auth w]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
MA [auth v],
NA [auth w]		IPR006595CTLH, C-terminal LisH motifDomain
MA [auth v],
NA [auth w]		IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
MA [auth v],
NA [auth w]		IPR045184WD40 repeat-containing protein SMU1Family
MA [auth v],
NA [auth w]		IPR001680WD40 repeatRepeat
MA [auth v],
NA [auth w]		IPR006594LIS1 homology motifConserved Site
MA [auth v],
NA [auth w]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
JA [auth B]IPR048863Pre-mRNA-splicing helicase BRR2-like, plug domainDomain
JA [auth B]IPR041094Brr2, N-terminal helicase PWI domainDomain
JA [auth B]IPR004179Sec63 domainDomain
JA [auth B]IPR014756Immunoglobulin E-setHomologous Superfamily
JA [auth B]IPR011545DEAD/DEAH-box helicase domainDomain
JA [auth B]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
JA [auth B]IPR050474Helicase Hel308/SKI2-likeFamily
JA [auth B]IPR001650Helicase, C-terminal domain-likeDomain
JA [auth B]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
JA [auth B]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
JA [auth B]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
JA [auth B]IPR035892C2 domain superfamilyHomologous Superfamily
HA [auth 7]IPR045146Splicing factor 3A subunit 1Family
HA [auth 7]IPR035967SWAP/Surp superfamilyHomologous Superfamily
HA [auth 7]IPR000061SWAP/SurpDomain
HA [auth 7]IPR000626Ubiquitin-like domainDomain
HA [auth 7]IPR035563Splicing factor 3A subunit 1, ubiquitin domainDomain
HA [auth 7]IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily
HA [auth 7]IPR022030Splicing factor 3A subunit 1, conserved domainDomain
GA [auth 2A]IPR001611Leucine-rich repeatRepeat
GA [auth 2A]IPR003603U2A'/phosphoprotein 32 family A, C-terminalDomain
GA [auth 2A]IPR032675Leucine-rich repeat domain superfamilyHomologous Superfamily
GA [auth 2A]IPR044640U2 small nuclear ribonucleoprotein A'Family
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		IPR044641Sm-like protein Lsm7/SmGFamily
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		IPR034098Small nuclear ribonucleoprotein GFamily
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		IPR047575Sm domainDomain
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		IPR010920LSM domain superfamilyHomologous Superfamily
SA [auth 42],
T [auth 52],
Y [auth 22]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
SA [auth 42],
T [auth 52],
Y [auth 22]		IPR047575Sm domainDomain
SA [auth 42],
T [auth 52],
Y [auth 22]		IPR027248Small nuclear ribonucleoprotein Sm D2Family
SA [auth 42],
T [auth 52],
Y [auth 22]		IPR010920LSM domain superfamilyHomologous Superfamily
B [auth 8],
RB [auth G]		IPR031781SF3A2 domainDomain
B [auth 8],
RB [auth G]		IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
B [auth 8],
RB [auth G]		IPR013087Zinc finger C2H2-typeDomain
B [auth 8],
RB [auth G]		IPR052092Splicing Factor 3A Subunit 2Family
B [auth 8],
RB [auth G]		IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
B [auth 8],
RB [auth G]		IPR000690Matrin/U1-C, C2H2-type zinc fingerDomain
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		IPR017131Small ribonucleoprotein associated, SmB/SmNFamily
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		IPR047575Sm domainDomain
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		IPR010920LSM domain superfamilyHomologous Superfamily
Q [auth 68]IPR001163Sm domain, eukaryotic/archaea-typeDomain
Q [auth 68]IPR047575Sm domainDomain
Q [auth 68]IPR034103Sm-like protein Lsm8Domain
Q [auth 68]IPR010920LSM domain superfamilyHomologous Superfamily
Q [auth 68]IPR044642U6 snRNA-associated Sm-like protein Lsm1/8Family
O [auth 66]IPR001163Sm domain, eukaryotic/archaea-typeDomain
O [auth 66]IPR047575Sm domainDomain
O [auth 66]IPR016487Sm-like protein Lsm6/SmFFamily
O [auth 66]IPR010920LSM domain superfamilyHomologous Superfamily
M [auth 64]IPR001163Sm domain, eukaryotic/archaea-typeDomain
M [auth 64]IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
M [auth 64]IPR047575Sm domainDomain
M [auth 64]IPR034101Sm-like protein Lsm4Domain
M [auth 64]IPR010920LSM domain superfamilyHomologous Superfamily
L [auth 63]IPR040002U6 snRNA-associated Sm-like protein Lsm3Family
L [auth 63]IPR001163Sm domain, eukaryotic/archaea-typeDomain
L [auth 63]IPR047575Sm domainDomain
L [auth 63]IPR010920LSM domain superfamilyHomologous Superfamily
L [auth 63]IPR034105Sm-like protein Lsm3Domain
K [auth 62]IPR001163Sm domain, eukaryotic/archaea-typeDomain
K [auth 62]IPR047575Sm domainDomain
K [auth 62]IPR010920LSM domain superfamilyHomologous Superfamily
K [auth 62]IPR016654U6 snRNA-associated Sm-like protein LSm2Family

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A [auth B4]Pharos:  Q15427
C [auth 9],
SB [auth H]		Pharos:  Q12874
D [auth B2]Pharos:  Q13435
E [auth B5]Pharos:  Q9BWJ5
H [auth BP]Pharos:  Q7RTV0
I [auth B1]Pharos:  O75533
J [auth B6]Pharos:  Q9Y3B4
N [auth 65]Pharos:  Q9Y4Y9
P [auth 67]Pharos:  Q9UK45
FA [auth 21],
QA [auth 41],
S [auth 51]		Pharos:  P62314
AA [auth 2f],
TA [auth 4f],
U [auth 5f]		Pharos:  P62306
EA [auth 2e],
RA [auth 4e],
V [auth 5e]		Pharos:  P62304
CA [auth 23],
UA [auth 43],
X [auth 53]		Pharos:  P62318
Z [auth 2B]Pharos:  P08579
IA [auth E]Pharos:  Q96DI7
KA [auth x],
LA [auth y]		Pharos:  Q13123
PA [auth W]Pharos:  O43447
YA [auth Q]Pharos:  P41223
DB [auth L]Pharos:  Q8WWY3
FB [auth N]Pharos:  O94906
HB [auth I]Pharos:  Q8NAV1
IB [auth S]Pharos:  O43290
JB [auth C]Pharos:  Q15029
KB [auth M]Pharos:  P55769
LB [auth T]Pharos:  O14776
OB [auth r]Pharos:  Q96NC0
PB [auth J]Pharos:  O43395
QB [auth s]Pharos:  Q9BZL1
G [auth B3]Pharos:  Q15393
GB [auth A]Pharos:  Q6P2Q9
EB [auth F]Pharos:  O43172
BB [auth K]Pharos:  P55081
AB [auth X]Pharos:  O75554
ZA [auth D]Pharos:  P83876
OA [auth z]Pharos:  Q07955
MA [auth v],
NA [auth w]		Pharos:  Q2TAY7
JA [auth B]Pharos:  O75643
HA [auth 7]Pharos:  Q15459
DA [auth 2g],
W [auth 5g],
WA [auth 4g]		Pharos:  P62308
SA [auth 42],
T [auth 52],
Y [auth 22]		Pharos:  P62316
B [auth 8],
RB [auth G]		Pharos:  Q15428
BA [auth 2b],
R [auth 5b],
VA [auth 4b]		Pharos:  P14678
Q [auth 68]Pharos:  O95777
O [auth 66]Pharos:  P62312
M [auth 64]Pharos:  Q9Y4Z0
L [auth 63]Pharos:  P62310
K [auth 62]Pharos:  Q9Y333